RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8843
(76 letters)
>gnl|CDD|238667 cd01371, KISc_KIF3, Kinesin motor domain, kinesins II or
KIF3_like proteins. Subgroup of kinesins, which form
heterotrimers composed of 2 kinesins and one non-motor
accessory subunit. Kinesins II play important roles in
ciliary transport, and have been implicated in neuronal
transport, melanosome transport, the secretory pathway,
and mitosis. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In this group the motor
domain is found at the N-terminus (N-type). N-type
kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a
speed of about 6400 Angstroms per second. To achieve
that, kinesin head groups work in pairs. Upon replacing
ADP with ATP, a kinesin motor domain increases its
affinity for microtubule binding and locks in place.
Also, the neck linker binds to the motor domain, which
repositions the other head domain through the
coiled-coil domain close to a second tubulin dimer,
about 80 Angstroms along the microtubule. Meanwhile,
ATP hydrolysis takes place, and when the second head
domain binds to the microtubule, the first domain again
replaces ADP with ATP, triggering a conformational
change that pulls the first domain forward.
Length = 333
Score = 60.5 bits (147), Expect = 1e-12
Identities = 21/45 (46%), Positives = 30/45 (66%)
Query: 25 ESVQVVVRCRPMNSSEISGGYDKVVDMWPNRGVIEISNPKVKEKK 69
E+V+VVVRCRP+N E S G ++V + NRG + + NPK K+
Sbjct: 1 ENVKVVVRCRPLNKREKSEGAPEIVGVDENRGQVTVHNPKADAKE 45
>gnl|CDD|238660 cd01364, KISc_BimC_Eg5, Kinesin motor domain, BimC/Eg5 spindle
pole proteins, participate in spindle assembly and
chromosome segregation during cell division. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found
at the N-terminus (N-type), N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 352
Score = 38.0 bits (89), Expect = 1e-04
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 26 SVQVVVRCRPMNSSEISGGYDKVVDMWPNRGVIEISN 62
++QVVVRCRP NS E VV++ + I +S
Sbjct: 3 NIQVVVRCRPRNSRERKEKSSVVVEVSGSSKEIIVST 39
>gnl|CDD|238661 cd01365, KISc_KIF1A_KIF1B, Kinesin motor domain, KIF1_like
proteins. KIF1A (Unc104) transports synaptic vesicles
to the nerve terminal, KIF1B has been implicated in
transport of mitochondria. Both proteins are expressed
in neurons. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In most kinesins, the
motor domain is found at the N-terminus (N-type).
N-type kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
In contrast to the majority of dimeric kinesins, most
KIF1A/Unc104 kinesins are monomeric motors. A
lysine-rich loop in KIF1A binds to the negatively
charged C-terminus of tubulin and compensates for the
lack of a second motor domain, allowing KIF1A to move
processively.
Length = 356
Score = 36.9 bits (86), Expect = 2e-04
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 25 ESVQVVVRCRPMNSSEISGGYDKVVDMWPNRGVIEISNPK 64
+V+V VR RP NS E + G +V M V + NPK
Sbjct: 1 ANVKVAVRVRPFNSREKNRGSKCIVQMPGK--VTTLKNPK 38
>gnl|CDD|238668 cd01372, KISc_KIF4, Kinesin motor domain, KIF4-like subfamily.
Members of this group seem to perform a variety of
functions, and have been implicated in neuronal
organelle transport and chromosome segregation during
mitosis. This catalytic (head) domain has ATPase
activity and belongs to the larger group of P-loop
NTPases. Kinesins are microtubule-dependent molecular
motors that play important roles in intracellular
transport and in cell division. In most kinesins, the
motor domain is found at the N-terminus (N-type).
N-type kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a
speed of about 6400 Angstroms per second. To achieve
that, kinesin head groups work in pairs. Upon replacing
ADP with ATP, a kinesin motor domain increases its
affinity for microtubule binding and locks in place.
Also, the neck linker binds to the motor domain, which
repositions the other head domain through the
coiled-coil domain close to a second tubulin dimer,
about 80 Angstroms along the microtubule. Meanwhile,
ATP hydrolysis takes place, and when the second head
domain binds to the microtubule, the first domain again
replaces ADP with ATP, triggering a conformational
change that pulls the first domain forward.
Length = 341
Score = 35.7 bits (83), Expect = 6e-04
Identities = 12/40 (30%), Positives = 18/40 (45%)
Query: 25 ESVQVVVRCRPMNSSEISGGYDKVVDMWPNRGVIEISNPK 64
SV+V VR RP+ E+ G V + P + + K
Sbjct: 1 SSVRVAVRVRPLLPKELLEGCQVCVSVVPGEPQVTVGTDK 40
>gnl|CDD|214526 smart00129, KISc, Kinesin motor, catalytic domain. ATPase.
Microtubule-dependent molecular motors that play
important roles in intracellular transport of
organelles and in cell division.
Length = 335
Score = 34.1 bits (79), Expect = 0.002
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 26 SVQVVVRCRPMNSSEISGGYDKVVDMWPNRG--VIEISNPKVKEKK 69
+++VVVR RP+N E S VV G + S + +K
Sbjct: 1 NIRVVVRVRPLNKREKSRKSPSVVPFPDKVGKTLTVRSPKNRQGEK 46
>gnl|CDD|238666 cd01370, KISc_KIP3_like, Kinesin motor domain, KIP3-like
subgroup. The yeast kinesin KIP3 plays a role in
positioning the mitotic spindle. This catalytic (head)
domain has ATPase activity and belongs to the larger
group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found
at the N-terminus (N-type). N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 338
Score = 32.6 bits (75), Expect = 0.007
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 26 SVQVVVRCRPMNSSEISGGYDKVVD 50
S+ V VR RP N E G +VV
Sbjct: 1 SLTVAVRVRPFNEKEKQEGTRRVVK 25
>gnl|CDD|238663 cd01367, KISc_KIF2_like, Kinesin motor domain, KIF2-like group.
KIF2 is a protein expressed in neurons, which has been
associated with axonal transport and neuron
development; alternative splice forms have been
implicated in lysosomal translocation. This catalytic
(head) domain has ATPase activity and belongs to the
larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In this subgroup the motor domain is found in
the middle (M-type) of the protein chain. M-type
kinesins are (+) end-directed motors, i.e. they
transport cargo towards the (+) end of the microtubule.
Kinesin motor domains hydrolyze ATP at a rate of about
80 per second, and move along the microtubule at a
speed of about 6400 Angstroms per second (KIF2 may be
slower). To achieve that, kinesin head groups work in
pairs. Upon replacing ADP with ATP, a kinesin motor
domain increases its affinity for microtubule binding
and locks in place. Also, the neck linker binds to the
motor domain, which repositions the other head domain
through the coiled-coil domain close to a second
tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 322
Score = 31.8 bits (73), Expect = 0.015
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 29 VVVRCRPMNSSEISGGYDKVVDMWPNRGVIEISNPKVKE 67
V VR RP+N E+S G VV + + + PK K
Sbjct: 5 VAVRKRPLNDKELSKGETDVVSC-ESNPTVTVHEPKTKV 42
>gnl|CDD|238054 cd00106, KISc, Kinesin motor domain. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Kinesins are microtubule-dependent
molecular motors that play important roles in
intracellular transport and in cell division. In most
kinesins, the motor domain is found at the N-terminus
(N-type), in some its is found in the middle (M-type),
or C-terminal (C-type). N-type and M-type kinesins are
(+) end-directed motors, while C-type kinesins are (-)
end-directed motors, i.e. they transport cargo towards
the (-) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 328
Score = 28.7 bits (65), Expect = 0.18
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 26 SVQVVVRCRPMNSSEISGGYDKVVDMWPNRGVIEISNPKVKEKKIKD 72
+++VVVR RP+N E S + + + N+ V ++ K
Sbjct: 1 NIRVVVRIRPLNGRE-SKSEESCITVDDNKTVTLTPPKDGRKAGPKS 46
>gnl|CDD|238665 cd01369, KISc_KHC_KIF5, Kinesin motor domain, kinesin heavy chain
(KHC) or KIF5-like subgroup. Members of this group have
been associated with organelle transport. This
catalytic (head) domain has ATPase activity and belongs
to the larger group of P-loop NTPases. Kinesins are
microtubule-dependent molecular motors that play
important roles in intracellular transport and in cell
division. In most kinesins, the motor domain is found
at the N-terminus (N-type). N-type kinesins are (+)
end-directed motors, i.e. they transport cargo towards
the (+) end of the microtubule. Kinesin motor domains
hydrolyze ATP at a rate of about 80 per second, and
move along the microtubule at a speed of about 6400
Angstroms per second. To achieve that, kinesin head
groups work in pairs. Upon replacing ADP with ATP, a
kinesin motor domain increases its affinity for
microtubule binding and locks in place. Also, the neck
linker binds to the motor domain, which repositions the
other head domain through the coiled-coil domain close
to a second tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 325
Score = 28.4 bits (64), Expect = 0.25
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 25 ESVQVVVRCRPMNSSEISGGYDKVVD 50
+++VV R RP+N E G +V
Sbjct: 2 CNIKVVCRFRPLNEKEELRGSKSIVK 27
>gnl|CDD|215803 pfam00225, Kinesin, Kinesin motor domain.
Length = 326
Score = 27.2 bits (61), Expect = 0.60
Identities = 10/41 (24%), Positives = 17/41 (41%)
Query: 32 RCRPMNSSEISGGYDKVVDMWPNRGVIEISNPKVKEKKIKD 72
R RP+N E S G +V++ + S + + K
Sbjct: 1 RVRPLNEREKSRGSSDIVNVDETDSEDKESVVITNKGREKT 41
>gnl|CDD|238669 cd01373, KISc_KLP2_like, Kinesin motor domain, KLP2-like
subgroup. Members of this subgroup seem to play a role
in mitosis and meiosis. This catalytic (head) domain
has ATPase activity and belongs to the larger group of
P-loop NTPases. Kinesins are microtubule-dependent
molecular motors that play important roles in
intracellular transport and in cell division. In most
kinesins, the motor domain is found at the N-terminus
(N-type). N-type kinesins are (+) end-directed motors,
i.e. they transport cargo towards the (+) end of the
microtubule. Kinesin motor domains hydrolyze ATP at a
rate of about 80 per second, and move along the
microtubule at a speed of about 6400 Angstroms per
second. To achieve that, kinesin head groups work in
pairs. Upon replacing ADP with ATP, a kinesin motor
domain increases its affinity for microtubule binding
and locks in place. Also, the neck linker binds to the
motor domain, which repositions the other head domain
through the coiled-coil domain close to a second
tubulin dimer, about 80 Angstroms along the
microtubule. Meanwhile, ATP hydrolysis takes place, and
when the second head domain binds to the microtubule,
the first domain again replaces ADP with ATP,
triggering a conformational change that pulls the first
domain forward.
Length = 337
Score = 27.1 bits (60), Expect = 0.83
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 27 VQVVVRCRPMNSSEISGGYDKVV 49
V+VVVR RP N E GG + +
Sbjct: 3 VKVVVRIRPPNEIEADGGQGQCL 25
>gnl|CDD|179654 PRK03818, PRK03818, putative transporter; Validated.
Length = 552
Score = 26.8 bits (60), Expect = 1.1
Identities = 11/36 (30%), Positives = 19/36 (52%), Gaps = 7/36 (19%)
Query: 47 KVVDM-WPNRG------VIEISNPKVKEKKIKDLNI 75
+ VD RG + ++N KV KK++DL++
Sbjct: 276 EEVDTSLSTRGTDLRSERVVVTNEKVLGKKLRDLHL 311
>gnl|CDD|116892 pfam08309, LVIVD, LVIVD repeat. This repeat is found in
bacterial and archaeal cell surface proteins, many of
which are hypothetical. The secondary structure
corresponding to this repeat is predicted to comprise 4
beta-strands which may associate to form a
beta-propeller [Adindla et al. Comparative and
Functional Genomics 2004; 5:2-16]. The repeat copy
number varies from 2-14. This repeat is sometimes found
with the PKD domain pfam00801.
Length = 42
Score = 24.9 bits (55), Expect = 1.6
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 41 ISGGYDKVVDMWPNRGVIEISNP 63
+SG Y V D +++ISNP
Sbjct: 9 VSGNYAYVADGDNGLVIVDISNP 31
>gnl|CDD|173906 cd00812, LeuRS_core, catalytic core domain of leucyl-tRNA
synthetases. Leucyl tRNA synthetase (LeuRS) catalytic
core domain. This class I enzyme is a monomer which
aminoacylates the 2'-OH of the nucleotide at the 3' of
the appropriate tRNA. The core domain is based on the
Rossman fold and is responsible for the ATP-dependent
formation of the enzyme bound aminoacyl-adenylate. It
contains the characteristic class I HIGH and KMSKS
motifs, which are involved in ATP binding. In Aquifex
aeolicus, the gene encoding LeuRS is split in two, just
before the KMSKS motif. Consequently, LeuRS is a
heterodimer, which likely superimposes with the LeuRS
monomer found in most other organisms. LeuRS has an
insertion in the core domain, which is subject to both
deletions and rearrangements and thus differs between
prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This
editing region hydrolyzes mischarged cognate tRNAs and
thus prevents the incorporation of chemically similar
amino acids.
Length = 314
Score = 24.5 bits (54), Expect = 7.0
Identities = 10/31 (32%), Positives = 17/31 (54%), Gaps = 4/31 (12%)
Query: 44 GYDKVVDMWPNRGVIEISNPKVKEKKIKDLN 74
+ K++D W ++ S + KEK +KDL
Sbjct: 124 NWCKLLDQW----FLKYSETEWKEKLLKDLE 150
>gnl|CDD|221154 pfam11640, TAN, Telomere-length maintenance and DNA damage repair.
ATM is a large protein kinase, in humans, critical for
responding to DNA double-strand breaks (DSBs). Tel1, the
orthologue from budding yeast, also regulates responses
to DSBs. Tel1 is important for maintaining viability and
for phosphorylation of the DNA damage signal transducer
kinase Rad53 (an orthologue of mammalian CHK2). In
addition to functioning in the response to DSBs,
numerous findings indicate that Tel1/ATM regulates
telomeres. The overall domain structure of Tel1/ATM is
shared by proteins of the phosphatidylinositol 3-kinase
(PI3K)-related kinase (PIKK) family, but this family
carries a unique and functionally important TAN sequence
motif, near its N-terminal, LxxxKxxE/DRxxxL. which is
conserved specifically in the Tel1/ATM subclass of the
PIKKs. The TAN motif is essential for both telomere
length maintenance and Tel1 action in response to DNA
damage. It is classified as an EC:2.7.11.1.
Length = 154
Score = 23.9 bits (52), Expect = 8.2
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 55 RGVIEISNPKVKEKKIKDL 73
R +E + K K K + L
Sbjct: 89 RLFVEKAISKFKRKTLTAL 107
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.310 0.131 0.368
Gapped
Lambda K H
0.267 0.0794 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,745,515
Number of extensions: 275532
Number of successful extensions: 201
Number of sequences better than 10.0: 1
Number of HSP's gapped: 201
Number of HSP's successfully gapped: 20
Length of query: 76
Length of database: 10,937,602
Length adjustment: 46
Effective length of query: 30
Effective length of database: 8,897,318
Effective search space: 266919540
Effective search space used: 266919540
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.1 bits)